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Arabnia, Hamid R.

Advances in Computational Biology

Arabnia, Hamid R. - Advances in Computational Biology, ebook

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ISBN: 9781441959133
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Table of contents

1. A Classification Method Based on Similarity Measures of Generalized Fuzzy Numbers in Building Expert System for Postoperative Patients
Pasi Luukka

2. Efficient Support Vector Machine Method for Survival Prediction with SEER Data
Zhenqiu Liu, Dechang Chen, Guoliang Tian, Man-Lai Tang, Ming Tan, Li Sheng

3. Searching Maximal Degenerate Motifs Guided by a Compact Suffix Tree
Hongshan Jiang, Ying Zhao, Wenguang Chen, Weimin Zheng

4. Exploring Motif Composition of Eukaryotic Promoter Regions
Nikola Stojanovic, Abanish Singh

5. Large-Scale Analysis of Phylogenetic Search Behavior
Hyun Jung Park, Seung-Jin Sul, Tiffani L. Williams

6. Silicosection and Elucidation of the Plant Circadian Clock Using Bayesian Classifiers and New Genemining Algorithm
Sandra Smieszek, Rainer Richter, Bartlomiej Przychodzen, Jaroslaw Maciejewski

7. ChemBrowser: A Flexible Framework for Mining Chemical Documents
Xian Wu, Li Zhang, Ying Chen, James Rhodes, Thomas D. Griffin, Stephen K. Boyer, Alfredo Alba, Keke Cai

8. Experimental Study of Modified Voting Algorithm for Planted (l,d)-Motif Problem
Hazem M. Bahig, Mostafa M. Abbas, Ashraf Bhery

9. Prediction of Severe Sepsis Using SVM Model
Shu-Li Wang, Fan Wu, Bo-Hang Wang

10. Online Multi-divisive Hierarchical Clustering for On-Body Sensor Data
Ibrahim Musa Ishag Musa, Anour F. A. Dafa-Alla, Gyeong Min Yi, Dong Gyu Lee, Myeong-Chan Cho, Jang-Whan Bae, Keun Ho Ryu

11. On Quality Assurance and Assessment of Biological Datasets and Related Statistics
Maria Vardaki, Haralambos Papageorgiou

12. Pattern Recognition-Informed Feedback for Nanopore Detector Cheminformatics
A. Murat Eren, Iftekhar Amin, Amanda Alba, Eric Morales, Alexander Stoyanov, Stephen Winters-Hilt

13. An MLP Neural Network for ECG Noise Removal Based on Kalman Filter
Sara Moein

14. Discovery of Structural Motifs Using Protein Structural Alphabets and 1D Motif-Finding Methods
Shih-Yen Ku, Yuh-Jyh Hu

15. Biological Databases at DNA Data Bank of Japan in the Era of Next-Generation Sequencing Technologies
Yuichi Kodama, Eli Kaminuma, Satoshi Saruhashi, Kazuho Ikeo, Hideaki Sugawara, Yoshio Tateno, Yasukazu Nakamura

16. Comparison of Microarray Preprocessing Methods
K. Shakya, H. J. Ruskin, G. Kerr, M. Crane, J. Becker

17. A Robust Ensemble Classification Method Analysis
Zhongwei Zhang, Jiuyong Li, Hong Hu, Hong Zhou

18.
k-NN for the Classification of Human Cancer Samples Using the Gene Expression Profiles
Manuel Martín-Merino

19. The Application of Regular Expression-Based Pattern Matching to Profiling the Developmental Factors that Contribute to the Development of the Inner Ear
Christopher M. Frenz, Dorothy A. Frenz

20. Functionally Informative Tag SNP Selection Using a Pareto-Optimal Approach
Phil Hyoun Lee, Jae-Yoon Jung, Hagit Shatkay

21. KMeans Greedy Search Hybrid Algorithm for Biclustering Gene Expression Data
Shyama Das, Sumam Mary Idicula

22. Robust Stability Analysis and Design Under Consideration of Multiple Feedback Loops of the Tryptophan Regulatory Network of Escherichia coli

A. Meyer-Baese, F. Theis, M. R. Emmett

23. FM-GA and CM-GA for Gene Microarray Analysis
Lily R. Liang, Rommel A. Benites Palomino, Zhao Lu, Vinay Mandal, Deepak Kumar

24. Novel Features for Automated Cell Phenotype Image Classification
Loris Nanni, Sheryl Brahnam, Alessandra Lumini

25. A Relational Fuzzy C-Means Algorithm for Detecting Protein Spots in Two-Dimensional Gel Images
Shaheera Rashwan, Talaat Faheem, Amany Sarhan, Bayumy A. B. Youssef

26. Assigning Probabilities to Mascot Peptide Identification Using Logistic Regression
Jinhong Shi, Fang-Xiang Wu

27. Genome-Wide EST Data Mining Approaches to Resolving Incongruence of Molecular Phylogenies
Yunfeng Shan, Robin Gras

28. Building a Parallel Between Structural and Topological Properties
Omar Gaci

29. GNCPro: Navigate Human Genes and Relationships Through Net-Walking
Guozhen Gordon Liu, Elvena Fong, Xiao Zeng

30. Small-Scale Modeling Approach and Circuit Wiring of the Unfolded Protein Response in Mammalian Cells
Rodica Curtu, Danilo Diedrichs

31. Random-Walk Mechanism in the Genetic Recombination
Youhei Fujitani, Junji Kawai, Ichizo Kobayashi

32. Critical Assessment of Side Chain Conformation Prediction in Modelling of Single Point Amino Acid Mutation
Anna Marabotti, Angelo Facchiano

33. Temporal Anomaly Detection: An Artificial Immune Approach Based on T Cell Activation, Clonal Size Regulation and Homeostasis
Mário J. Antunes, Manuel E. Correia

34. An Integrated Methodology for Mining Promiscuous Proteins: A Case Study of an Integrative Bioinformatics Approach for Hepatitis C Virus Non-structural 5a Protein
Mahmoud M. ElHefnawi, Aliaa A. Youssif, Atef Z. Ghalwash, Wessam H. El Behaidy

35. Enhanced Prediction of Conformational Flexibility and Phosphorylation in Proteins
Karthikeyan Swaminathan, Rafal Adamczak, Aleksey Porollo, Jarosław Meller

36. Why Are MD Simulated Protein Folding Times Wrong?
Dmitry Nerukhdn

37. Automatic TEM Image Analysis of Membranes for 2D Crystal Detection
Argyro Karathanou, Nicolas Coudray, Gilles Hermann, Jean-Luc Buessler, Jean-Philippe Urban

38. High Performance Computing Approaches for 3D Reconstruction of Complex Biological Specimens
M. Laura Silva, Javier Roca-Piera, José-Jesús Fernández

39. Protein Identification Using Receptor Arrays and Mass Spectrometry
Timothy R. Langlois, Richard W. Vachet, Ramgopal R. Mettu

40. Assessing Consistency Between Versions of Genotype-Calling Algorithm Birdseed for the Genome-Wide Human SNP Array 6.0 Using HapMap Samples
Huixiao Hong, Lei Xu, Weida Tong

41. An Overview of the BioExtract Server: A Distributed, Web-Based System for Genomic Analysis
C. M. Lushbough, V. P. Brendel

42. A Deterministic DNA Database Search
A. Kheniche, A. Salhi, A. Harrison, J. M. Dowden

43. Taxonomic Parsing of Bacteriophages Using Core Genes and In Silico Proteome-Based CGUG and Applications to Small Bacterial Genomes
Padmanabhan Mahadevan, Donald Seto

44. Analysis of Gene Translation Using a Communications Theory Approach
Mohammad Al Bataineh, Lun Huang, Maria Alonso, Nick Menhart, Guillermo E. Atkin

45. A Fast and Efficient Algorithm for Mapping Short Sequences to a Reference Genome
Pavlos Antoniou, Costas S. Iliopoulos, Laurent Mouchard, Solon P. Pissis

46. Sequence Analysis and Homology Modeling Gallus gallus Glutathione S-transferase (Q08392)
Patchikolla Satheesh, Allam Appa Rao, G. R. Sridhar, Kudipudi Srinivas, Chandra Sekhar Akula

47. Toward Optimizing the Cache Performance of Suffix Trees for Sequence Analysis Algorithms Suffix Tree Cache Performance Optimization
Chih Lee, Chun-Hsi Huang

48. Toward a Visualization of DNA Sequences
David N. Cox, Alan L. Tharp

49. A Practical Approach for Computing the Active Site of the Ribonucleoside Hydrolase of E. coli Encoded by rihC
Anthony Farone, Mary Farone, Paul Kline, Terrance Quinn, Zachariah Sinkala

50. Addressing the Docking Problem: Finding Similar 3-D Protein Envelopes for Computer-Aided Drug Design
Eric Paquet, Herna L. Viktor

51. Simultaneous Pathogen Detection and Antibiotic Resistance Characterization Using SNP-Based Multiplexed Oligonucleotide Ligation-PCR (MOL-PCR)
Jian Song, Po-E Li, Jason Gans, Momchilo Vuyisich, Alina Deshpande, Murray Wolinsky, P. Scott White

52. Specification and Verification of Pharmacokinetic Models
YoungMin Kwon, Eunhee Kim

53. Dehydron Analysis: Quantifying the Effect of Hydrophobic Groups on the Strength and Stability of Hydrogen Bonds
Christopher M. Fraser, Ariel Fernández, L. Ridgway Scott

54. Docking to Large Allosteric Binding Sites on Protein Surfaces
Ursula D. Ramirez, Faina Myachina, Linda Stith, Eileen K. Jaffe

55. Modeling of ATP-Sensitive Inward Rectifier Potassium Channel 11 and Inhibition Mechanism of the Natural Ligand, Ellagic Acid, Using Molecular Docking
Alex J Mathew, Nixon N Raj, M Sugappriya, Sangeetha M Priyadarshini

56. GPU Acceleration of Dock6’s Amber Scoring Computation
Hailong Yang, Qiongqiong Zhou, Bo Li, Yongjian Wang, Zhongzhi Luan, Depei Qian, Hanlu Li

57. Discriminative Distance Functions and the Patient Neighborhood Graph for Clinical Decision Support
Alexey Tsymbal, Martin Huber, Shaohua Kevin Zhou

58. A Scalable and Integrative System for Pathway Bioinformatics and Systems Biology
Behnam Compani, Trent Su, Ivan Chang, Jianlin Cheng, Kandarp H. Shah, Thomas Whisenant, Yimeng Dou, Adriel Bergmann, Raymond Cheong, Barbara Wold, Lee Bardwell, Andre Levchenko, Pierre Baldi, Eric Mjolsness

59. Registration of In Vivo Fluorescence Endomicroscopy Images Based on Feature Detection
Feng Zhao, Lee Sing Cheong, Feng Lin, Kemao Qian, Hock Soon Seah, Sun-Yuan Kung

60. Kinetic Models for Cancer Imaging
V. J. Schmidvolker

61. Using Web and Social Media for Influenza Surveillance
Courtney D. Corley, Diane J. Cook, Armin R. Mikler, Karan P. Singh

62. CodeSlinger: A Case Study in Domain-Driven Interactive Tool Design for Biomedical Coding Scheme Exploration and Use
Natalie L. Flowers

63. DigitalLung: Application of High-Performance Computing to Biological System Simulation
Greg W. Burgreen, Robert Hester, Bela Soni, David Thompson, D. Keith Walters, Keisha Walters

64. Consideration of Indices to Evaluate Age-Related Muscle Performance by Using Surface Electromyography
Hiroki Takada, Tomoki Shiozawa, Masaru Miyao, Yasuyuki Matsuura, Masumi Takada

65. A Study on Discrete Wavelet-Based Noise Removal from EEG Signals
K. Asaduzzaman, M. B. I. Reaz, F. Mohd-Yasin, K. S. Sim, M. S. Hussain

66. Enhancing the Communication Flow Between Alzheimer Patients, Caregivers, and Neuropsychologists
Abraham Rodriguez-Rodriguez, Leidia Martel-Monagas, Aaron Lopez-Rodriguez

67. An Improved 1-D Gel Electrophoresis Image Analysis System
Yassin Labyed, Naima Kaabouch, Richard R. Schultz, Brij B. Singh, Barry Milavetz

68. A Fuzzy Approach for Contrast Enhancement of Mammography Breast Images
Farhang Sahba, Anastasios Venetsanopoulos

69. Computational Modeling of a New Thrombectomy Device for the Extraction of Blood Clots
G. Romero, I. Higuera, M. L. Martinez, G. Pearce, N. Perkinson, C. Roffe, J. Wong

70. NEURONSESSIONS: A Web-Based Collaborative Tool to Create Brain Computational Models
Ana Porto, Guillermo Rodríguez, Julián Dorado, Alejandro Pazos

71. Toward Automating an Inference Model on Unstructured Terminologies: OXMIS Case Study
Jeffery L. Painter

72. Semantic Content-Based Recommendations Using Semantic Graphs
Weisen Guo, Steven B. Kraines

73. Modeling Membrane Localization: Case Study of a Ras Signaling Model
Edward C. Stites

74. A Study on Distributed PACS
Aylin Kantarcı, Tolga Utku Onbay

75. Epileptic EEG: A Comprehensive Study of Nonlinear Behavior
Moayed Daneshyari, L. Lily Kamkar, Matin Daneshyari

76. Computational Energetic Model of Morphogenesis Based on Multi-agent Cellular Potts Model
Sébastien Tripodi, Pascal Ballet, Vincent Rodin

77. Standardizing the Next Generation of Bioinformatics Software Development with BioHDF (HDF5)
Christopher E. Mason, Paul Zumbo, Stephan Sanders, Mike Folk, Dana Robinson, Ruth Aydt, Martin Gollery, Mark Welsh, N. Eric Olson, Todd M. Smith

78. Multisensor Smart System on a Chip
Louiza Sellami, Robert W. Newcomb

79. Visual Presentation as a Welcome Alternative to Textual Presentation of Gene Annotation Information
Jairav Desai, Jared M. Flatow, Jie Song, Lihua J. Zhu, Pan Du, Chiang-Ching Huang, Hui Lu, Simon M. Lin, Warren A. Kibbe

80. Automatic FRAP Analysis with Inhomogeneous Fluorescence Distribution and Movement Compensation
Harri Pölönen, Maurice Jansen, Elina Ikonen, Ulla Ruotsalainen

81. Sorting Circular Permutations by Bounded Transpositions
Xuerong Feng, Bhadrachalam Chitturi, Hal Sudborough

82. Annotating Patents with Medline MeSH Codes via Citation Mapping
Thomas D. Griffin, Stephen K. Boyer, Isaac G. Councill

83. Some New Measures of Entropy, Useful Tools in Biocomputing
Angel Garrido

Keywords: Life Sciences, Bioinformatics, Computational Biology/Bioinformatics, Systems Biology

Author(s)
Publisher
Springer
Publication year
2010
Language
en
Edition
1
Series
Advances in Experimental Medicine and Biology
Category
Natural Sciences
Format
Ebook
eISBN (PDF)
9781441959133

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